Molecular Biology and Evolution, Vol 16, 1329-1340, Copyright © 1999 by Society for Molecular Biology and Evolution
K Vijverberg and K Bachmann
We sequenced the first ca. 900 bp of the 5'-trnL(UAA)-trnV(UAC)/ndhJ region
of the chloroplast DNA of different Microseris accessions in order to
resolve homoplasious length variation detected in the trnL(UAA)-trnF(GAA)
region. We found two to four tandemly repeated trnF genes in the species of
Microseris (Asteraceae, Lactuceae) and two in their sister genus Uropappus.
Sequences indicated nonhomologous transitions between two, three, and four
trnF genes in different Microseris taxa. Independent origins of similar
trnF copy numbers were inferred from a chloroplast phylogeny of Microseris.
The taxa involved grow on separate continents, supporting parallel origins
of similar length variants. The changes in trnF copy numbers were best
explained by interchromosomal recombination with unequal crossing over. The
5' copies of the repeats showed the highest sequence conservation,
suggesting that these copies are likely to be functional trnF genes,
whereas the other ones probably represent pseudogenes. Our results show
that length polymorphisms accumulate once a duplicated sequence has become
incorporated. Due to parallel gains of similar trnF copy numbers,
homoplasious length variation was introduced into the data matrix. The data
demonstrate that length polymorphisms cannot be used as indicators for
phylogenetic distance unless they can be analyzed at the sequence level.
ORIGINAL ARTICLE
Molecular evolution of a tandemly repeated trnF(GAA) gene in the chloroplast genomes of Microseris (Asteraceae) and the use of structural mutations in phylogenetic analyses
Institute for Systematics and Population Biology, University of Amsterdam, The Netherlands. vijverberg@bio.uva.nl
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